BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy3275
(114 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZ6|Q Chain Q, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 141
Score = 85.5 bits (210), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 36/52 (69%), Positives = 48/52 (92%)
Query: 52 LGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
+GRVRTKTVKK SR +IEKYY+++TLDFHTNK++ EE++I+P+K LRNK+AG
Sbjct: 1 MGRVRTKTVKKTSRQVIEKYYSRMTLDFHTNKKVLEEVSILPSKRLRNKVAG 52
Score = 65.5 bits (158), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 36/71 (50%), Positives = 46/71 (64%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALEQDVIEVDSETKDMLRMLGRVRTKTV 60
M+R++ VRGIS+KLQEEERERR ++VPE SALE + I VD ET +ML LG V
Sbjct: 58 MRRIQRGPVRGISLKLQEEERERRMDFVPEKSALEVEEIRVDKETMEMLAALGMADLPGV 117
Query: 61 KKASRVIIEKY 71
++ V Y
Sbjct: 118 ERQQEVSAPTY 128
>pdb|3IZB|Q Chain Q, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|K Chain K, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|K Chain K, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|R Chain R, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|R Chain R, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 136
Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 38/52 (73%), Positives = 46/52 (88%)
Query: 52 LGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
+GRVRTKTVK+AS+ +IE+YY KLTLDF TNKR+C+EIA I +K LRNKIAG
Sbjct: 1 MGRVRTKTVKRASKALIERYYPKLTLDFQTNKRLCDEIATIQSKRLRNKIAG 52
Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/57 (57%), Positives = 43/57 (75%), Gaps = 4/57 (7%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALE----QDVIEVDSETKDMLRMLG 53
MKR++ VRGIS KLQEEERER+D YVPEVSAL+ V+ VD++T D+++ LG
Sbjct: 58 MKRIQKGPVRGISFKLQEEERERKDQYVPEVSALDLSRSNGVLNVDNQTSDLVKSLG 114
>pdb|2XZM|V Chain V, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|V Chain V, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 130
Score = 75.9 bits (185), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 34/52 (65%), Positives = 44/52 (84%)
Query: 52 LGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
+GRVRTKTVK+A++ +IE YY+KLT DFH NK+I E+A +P+K LRNKIAG
Sbjct: 1 MGRVRTKTVKRAAKSLIEHYYSKLTNDFHFNKKILSEVAQVPSKRLRNKIAG 52
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/53 (56%), Positives = 43/53 (81%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALEQDVIEVDSETKDMLRMLG 53
MKR++ VRGIS+K+QEEERERR +YVPE S ++ + + +D+ETK+ML+ LG
Sbjct: 58 MKRIQKGPVRGISLKVQEEERERRLDYVPEKSIIDIEKVTIDNETKEMLKKLG 110
>pdb|3ZEY|L Chain L, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 142
Score = 65.5 bits (158), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 29/52 (55%), Positives = 42/52 (80%)
Query: 52 LGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
+G++RTKTVK+AS+ I+EKY++KL DF+ NKRI ++ I +K L+NKIAG
Sbjct: 1 MGKIRTKTVKRASKQIVEKYFSKLNKDFYQNKRIVMDVTIARSKKLKNKIAG 52
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/55 (60%), Positives = 40/55 (72%), Gaps = 3/55 (5%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALE---QDVIEVDSETKDMLRML 52
MKRL VRGIS+KLQEEERERR +YVPEVS ++ QD I VD +T ML+ +
Sbjct: 58 MKRLARGPVRGISLKLQEEERERRMDYVPEVSHVDQAIQDGIRVDKQTLAMLKRM 112
>pdb|1RQ6|A Chain A, Solution Structure Of Ribosomal Protein S17e From
Methanobacterium Thermoautotrophicum, Northeast
Structural Genomics Consortium Target Tt802 ONTARIO
CENTER FOR Structural Proteomics Target Mth0803
Length = 62
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 36/52 (69%)
Query: 52 LGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
+G +RT VK+ ++ +IE + K T DF TNK++ EE + + TK LRNKIAG
Sbjct: 1 MGNIRTSFVKRIAKEMIETHPGKFTDDFDTNKKLVEEFSTVSTKHLRNKIAG 52
>pdb|3J20|S Chain S, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 67
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 36/56 (64%)
Query: 52 LGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAGGLIK 107
+G++R +K+ +R ++ KY + T DF NK+ +E+ + +K +RN+IAG + K
Sbjct: 1 MGKIRQGFIKRVARELVNKYPNEFTTDFEHNKKKVQELTNVTSKKIRNRIAGYVTK 56
>pdb|1XSZ|A Chain A, The Structure Of Ralf
pdb|1XSZ|B Chain B, The Structure Of Ralf
Length = 356
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 60 VKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPL 97
++KA R IIE + K + K ICE+ I P + +
Sbjct: 7 IEKAQREIIEAFNAKPKNGINKIKEICEQYKISPNEEI 44
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.134 0.358
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,825,469
Number of Sequences: 62578
Number of extensions: 92881
Number of successful extensions: 287
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 272
Number of HSP's gapped (non-prelim): 22
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)